Extended graphical lasso for multiple interaction networks for high dimensional omics data

by Jiang, H., Jiang, W., Xu, Y.
Published 2021

FEGS: a novel feature extraction model for protein sequences and its applications

by Liu, J., Liu, X., Mu, Z., Wei, L., Yu, T., Zheng, H.
Published 2021

GRAFIMO: Variant and haplotype aware motif scanning on pangenome graphs

by Bonnici, V., Garrison, E., Giugno, R., Pinello, L., Tognon, M.
Published 2021

CHARTS: a web application for characterizing and comparing tumor subpopulations in publicly available single-cell RNA-seq data sets

by Bernstein, M.N, Burkard, M.E, Collins, M., Kendziorski, C., Ni, Z., Stewart, R.
Published 2021

KinOrtho: a method for mapping human kinase orthologs across the tree of life and illuminating understudied kinases

by Byrne, D.P, Eyers, P.A, Gravel, N., Huang, L.-C, Kannan, N., Taujale, R., Venkat, A., Yeung, W.
Published 2021

Bipartite graph-based collaborative matrix factorization method for predicting miRNA-disease associations

by Cui, Z., Jiao, C.-N, Liu, J.-X, Yin, M.-M, Zhao, J.-X, Zhou, F.
Published 2021

COVID19 Disease Map, a computational knowledge repository of virus–host interaction mechanisms

by Acencio, M.L, Ackerman, E.E, Aghamiri, S.S, Auffray, C., Augé, F., Babur, O., Bachman, J.A, Ballereau, S., Balling, R., Barillot, E., Bauch, A., Beckmann, J.S, Bocskei, Z., Borlinghaus, H., Börnigen, D., Brauner, B., Calzone, L., Conti, M., Coort, S., Czauderna, T., De Meulder, B., de Waard, A., Demir, E., D'Eustachio, P., Dopazo, J., Dräger, A., Dugourd, A., Ehrhart, F., Eijssen, L., Esteban-Medina, M., Evelo, C.T, Fergusson, L., Fobo, G., Fraser, R., Freeman, T.C, Frishman, G., Funahashi, A., Gawron, P., Gillespie, M.E, Glaab, E., Goble, C., Golebiewski, M., Grouès, V., Gyori, B.M, Hanspers, K., Hasenauer, J., Haw, R., Heirendt, L., Helikar, T., Hermjakob, H., Hiki, Y., Hiroi, N., Hoch, M., Hu, X., Iannuccelli, M., Jassal, B., Kitano, H., Kocakaya, E., Korcsmaros, T., Kumar Gupta, S., Kuperstein, I., Kutmon, M., Licata, L., Luna, A., Maier, D., Marchesi, S., Martens, M., Matthews, L., Mazein, A., Messina, F., Modos, D., Monraz Gómez, L.C, Montagud, A., Montrone, C., Nakonecnij, V., Naldi, A., Naveez, M., Nesterova, A., Niarakis, A., Noël, V., Olbei, M., Orlic-Milacic, M., Orta-Resendiz, A., Ortseifen, V., Ostaszewski, M., Overall, R.W, Owen, S., Oxford, K., Peña-Chilet, M., Phair, R., Pham, N., Pico, A.R, Ponce de Leon, M., Porras, P., Puniya, B.L, Rameil, M., Ravel, J.-M, Renz, A., Rex, D.A.B, Rian, K., Riutta, A., Rothfels, K., Ruepp, A., Sacco, F., Saez-Rodriguez, J., Sander, C., Satagopam, V., Scheel, J., Schmiester, L., Schneider, R., Schreiber, F., Senff Ribeiro, A., Sevilla, C., Shamovsky, V., Shoemaker, J.E, Singh, V., Slenter, D., Smula, E., Soliman, S., Somers, J., Stein, L.D, Stephan, R., Summak, G.Y, Teuton, J., the COVID-19 Disease Map Community, Treveil, A., Turei, D., Valdeolivas, A., Valencia, A., Vanhoefer, J., Varusai, T., Vazquez, M., Vega, C., Wang, M., Wilighagen, E.L, Wolkenhauer, O., Wu, G., Yamada, T.G, Yuryev, A., Zucker, J.
Published 2021

Prediction of Synthetic Lethal Interactions in Human Cancers Using Multi-View Graph Auto-Encoder

by Cai, R., Fang, Y., Hao, Z., Li, X., Wu, D., Wu, M.
Published 2021

Circ_0067680 expedites the osteogenic differentiation of human bone marrow-derived mesenchymal stem cells through miR-4429/CTNNB1/Wnt/β-catenin pathway

by Huang, Y., Wan, S., Yang, M.
Published 2021

ANAT 3.0: a framework for elucidating functional protein subnetworks using graph-theoretic and machine learning approaches

by Almozlino, T., Sharan, R., Signorini, L.F
Published 2021

Inference of phenotype-relevant transcriptional regulatory networks elucidates cancer type-specific regulatory mechanisms in a pan-cancer study

by Emad, A., Sinha, S.
Published 2021

Exploring the Genomic Landscape of Cancer Patient Cohorts with GenVisR

by Campbell, K.M, Cotto, K.C, Griffith, M., Griffith, O.L, Skidmore, Z.L
Published 2021

Irisin mediates beiging of adipose-derived mesenchymal stem cells through binding to TRPC3

by Ba, L., Gu, J., Han, Q., Li, X., Shen, Y., Sun, Z., Xue, C., Yang, Y., Zhao, R.C
Published 2022

DeepSARS: simultaneous diagnostic detection and genomic surveillance of SARS-CoV-2

by Agrafiotis, A., Azizoglu, A., Beisel, C., Burcklen, E., Chang, C.-H, Dounas, A., Ehling, R., Feldkamp, M., Gao, B., Han, J., Hong, K.-L, Nadeau, S., Neumeier, D., Nissen, I., Oxenius, A., Petrillo, E., Reddy, S.T, Rudolf, F., Savic, M., Spahr, M., Stadler, T., Valenzuela, C., Yermanos, A.
Published 2022

Boolean factor graph model for biological systems: the yeast cell-cycle network

by Eslami, A., Kotiang, S.
Published 2021

MicrobeAnnotator: a user-friendly, comprehensive functional annotation pipeline for microbial genomes

by Conrad, R.E, Konstantinidis, K.T, Ruiz-Perez, C.A
Published 2021

Polymorphisms of potential drug resistant molecular markers in Plasmodium vivax from China–Myanmar border during 2008‒2017

by Chen, Q., Ji, X., Pan, Y., Wang, H., Wang, Z., Wang, Z., Wang, Z., Wei, C., Zhang, L.
Published 2022

Comparative study of the effect of solvents on the efficacy of neonicotinoid insecticides against malaria vector populations across Africa

by Assatse, T., Kayondo, J., Manzambi, E.Z, Menze, B.D, Mugenzi, L.M.J, Nguiffo-Nguete, D., Osae, M., Tchapga, W., Tchouakui, M., Watsenga, F., Wondji, C.S
Published 2022

miR-124-3p delivered by exosomes from heme oxygenase-1 modified bone marrow mesenchymal stem cells inhibits ferroptosis to attenuate ischemia–reperfusion injury in steatotic grafts...

by Li, X., Song, H., Tian, X., Tian, X., Wu, L., Yuan, M., Zheng, W., Zuo, H.
Published 2022